Protein Info for Shew_3007 in Shewanella loihica PV-4

Annotation: LysR family transcriptional regulator (RefSeq)

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 297 transmembrane" amino acids 97 to 113 (17 residues), see Phobius details PF00126: HTH_1" amino acids 9 to 67 (59 residues), 59.8 bits, see alignment E=2e-20 PF03466: LysR_substrate" amino acids 92 to 292 (201 residues), 118.8 bits, see alignment E=2.2e-38

Best Hits

KEGG orthology group: None (inferred from 100% identity to slo:Shew_3007)

Predicted SEED Role

"Predicted lactate-responsive transcriptional regulator of ykgEFG LDH gene cluster, LysR-type" in subsystem Lactate utilization

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See A3QHC5 at UniProt or InterPro

Protein Sequence (297 amino acids)

>Shew_3007 LysR family transcriptional regulator (RefSeq) (Shewanella loihica PV-4)
MARSVGTELELIHLFVHLVNTGGFSQVAKELGMPVATVSRKVTKLESLLDTQLIMRSTRK
LRLTEEGSELFGRYQNVVAQFDRCSEPRVEKAEGTLRIAAPVSIISMIFIGVLNDFSKAY
PDIQLHITQNNSSIDLIDEGVDVAIVGGAQPDSSWVSKSLGVLDYGLFASPGYLACAGTP
QHPDQLVEHSLIKVWPLFNWSMKHVSGEDFYYEGPAKLTLGDLNGAVRATVDDGGILYGP
ELFVKGELASGELRRVLPDWHGEQRRISLLYHQRTHQPLKVKLFIEFMQDRASCLFH